Sequence
atgc intronic sequence ATGC exonic sequencegtaagttgttatttctttatgatggtaatataatagagggatcattgtgcttgaagtttcatatatgagcatccttgtcagataaacttcagcaatgatctggttctcattttgacctactaggagaagaaaaccaaaatttaaaaatgttgttattggatttaatcaagagtctcacattttcactttgattttccagGAATGGTAGCAGCCCTGACCAATGAGAGTGCTACCAGCAAATCTGTATACTTTGCACATTGTACATCAGAGATGATCTTCATTACTCATTTGTTGGCTGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g09000.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os01g71280.1 (Oryza sativa), 3'ss of exon 3
gtaagttgttatttctttatgatggtaatataatagagggatcattgtgcttgaagtttcatatatgagcatccttgtcagataaacttcagcaatgatctggttctcattttgacctactaggagaagaaaaccaaaatttaaaaatgttgttattggatttaatcaagagtctcacattttcactttgattttccagGAATGGTAGCAGCCCTGACCAATGAGAGTGCTACCAGCAAATCTGTATACTTTGCACATTGTACATCAGAGATGATCTTCATTACTCATTTGTTGGCTGA
| ||| || | | ||| | | | ||| | | | || | ||| | || ||| | || || || || | | | || |||| | ||||||||||||| ||||| | || ||||||||||| || ||||| || || || ||||| ||||| || ||||||||||| ||||||||||||||| | | ||
----------------------------------------------------------------------agttctgtttgaagactgtttacaa-gttatagttttttctctc-tctgtt-------------caaggtata----tgtcatgttttga---gattaataataacccactttc-------tgttccagGAATGGTTGCAGCTTTAACTAATGAGAGTGCAACAAGCAAGTCGGTGTATTTTGCTCATTGCACGTCAGAGATGATATTCATTACTCATTTGCTCACAGA
upper sequence: Vv08s0007g09000.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os01g58740.1 (Oryza sativa), 3'ss of exon 3
gtaagttgttatttctttatgatggtaatataatagagggatcattgtgcttgaagtttcatatatgagcatccttgtcagataaacttcagcaatgatctggttctcattttgacctactaggagaagaaaaccaaaatttaaaaatgttgttattggatttaatcaagagtctcacattttcactttgattttccagGAATGGTAGCAGCCCTGACCAATGAGAGTGCTACCAGCAAATCTGTATACTTTGCACATTGTACATCAGAGATGATCTTCATTACTCATTTGTTGGCTGA
|| ||| | | || | |||| | || | | | || ||| | ||| | | | || | || ||| | ||||| | || | |||| ||||| ||||| || || ||||||||||| ||||||||||| || |||||||| | ||| ||||| || ||||| | ||| || || | |||| ||
-------------------------------------------------------------------------------------------gctatgctttacgtcgcgttttaatcttgtcgtggtcatctgcctttttttt----tcttggtttatgcttctgttaattttctgaaattttg----ttatcctgcagGTATGGTGGCAGCTCTAACAAATGAGAGTGCAACCAGCAAATCCGTTTACTTTGCTCTTTGCACATCTGAAATGATTTACATAACCCACCTTTTGGAAGA
upper sequence: Vv08s0007g09000.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G155348_T01 (Zea mays), 3'ss of exon 3
gtaagttgttatttctttatgatggtaatataatagagggatcattgtgcttgaagtttcatatatgagcatccttgtcagataaacttcagcaatgatctggttctcattttgacctactaggagaagaaaaccaaaatttaaaaatgttgttattggatttaatcaagagtctcacattttcactttgattttccagGAATGGTAGCAGCCCTGACCAATGAGAGTGCTACCAGCAAATCTGTATACTTTGCACATTGTACATCAGAGATGATCTTCATTACTCATTTGTTGGCTGA
|| | || | || | || | ||| ||| | | | || | | ||| |||| |||| ||| || || || || |||||||||| ||||| | || || |||||||| || |||||||||||||| ||||| ||||| || ||||||||||| ||||||||||||||| || | ||
------------------------------------------------------------------------------------gacctgaggagtgctactcagaccacct-aaccaactcagctagaggccct----ttcgcgagtacca-------gttttatcatatttctctaattctc---tttatgtttcagGAATGGTGGCAGCTTTAACAAACGAGAGTGCAACAAGCAAATCTGTATATTTTGCTCATTGCACGTCAGAGATGATATTCATTACTCATTTGCTGACAGA
upper sequence: Vv08s0007g09000.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G090747_T02 (Zea mays), 3'ss of exon 3
gtaagttgttatttctttatgatggtaatataatagagggatcattgtgcttgaagtttcatatatgagcatccttgtcagataaacttcagcaatgatctggttctcattttg-acctactaggagaagaaaaccaaaatttaaaaatgttgttattggatttaatcaagagtctca-cattttcactttgattttccagGAATGGTAGCAGCCCTGACCAATGAGAGTGCTACCAGCAAATCTGTATACTTTGCACATTGTACATCAGAGATGATCTTCATTACTCATTTGTTGGCTGA
|| || | ||| | | | | | | | | || | ||| ||||| ||||| || | |||| | | || || |||| |||||||| || || ||||| |||||||| |||||||||||||| |||||||||| ||| ||||| |||||||||| ||| || || | ||| ||
----------------------------------------------------------------------------------------------gtgcagtgaactttattctatgcacatagcttggcgctcagtgacacccccaagtagc-ctat--gatttcatcaatttgctgaacattctgat----atcttgcagGTATGGTAGCTGCACTAACCAACGAGAGTGCAACCAGCAAATCTGTTTACTTTGCACTTTGCACATCTGAGATGATCTACATCACACACCTTCTGGAAGA
upper sequence: Vv08s0007g09000.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G173195_T01 (Zea mays), 3'ss of exon 2
gtaagttgttatttctttatgatggtaatataatagagggatcattgtgcttgaagtttcatatatgagcatccttgtcagataaacttcagcaatgatctggttctcattttgacctactaggagaagaaaaccaaaatttaaaaatgttgttattggatttaatcaagagtctcacattttcactttgattttccagGAATGGTAGCAGCCCTGACCAATGAGAGTGCTACCAGCAAATCTGTATACTTTGCACATTGTACATCAGAGATGATCTTCATTACTCATTTGTTGGCTGA
||||| || || || | | ||| | | | ||| | | | || | || || | | |||| || | || | |||| ||||| || ||||| || ||||||||||| ||||||||||| ||||||||| ||| ||| ||||| || ||||| | ||| |||||| | | ||
------------------------------------------------------------------------------------------agcaa-aatttgtacgctatatcggg----tagcgcattacatccagtgcctcacggtcagcctaatatatgtaccatattgctgaacatggtc----ttatcgtgcagGTATGGTGGCGGCCCTTACGAATGAGAGTGCAACCAGCAAATCAGTATACTTTTCACTTTGCACATCGGAAATGATATACATCACTCATCTTCTAGCACC
upper sequence: Vv08s0007g09000.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G15900.1 (Glycine max), 3'ss of exon 2
gtaagttgttatttctttatgatggtaatataatagagggatcattgtgcttgaagtttcatatatgagcatccttgtcagataaacttcagcaatgatctggttctcattttgacctactaggagaagaaaaccaaaatttaaaaatgttgttattggatttaatcaagagtctcacattttcactttgat--tttccagGAATGGTAGCAGCCCTGACCAATGAGAGTGCTACCAGCAAATCTGTATACTTTGCACATTGTACATCAGAGATGATCTTCATTACTCATTTGTTGGCTGA
| || ||| | | | | | || | || | | | ||| | | || |||||| || | | || || ||||||||||||||||||| ||||||||||||||||| ||||||||||| ||||||||||| || |||||||||||||| || || |||||||||||||||||
-----------------------------------------------------------------------------------------------------gtttagtattacaagtggcaaatgggaaaatttgactgcgacaataggaacctgccttattcatttccacaacttacatttacattcttattattgtcagGAATGGTAGCAGCCCTTACCAATGAGAGTGCTACTAGCAAATCTGTCTACTTTGCACACTGCACATCAGAGATGATATTTATCACTCATTTGTTGGCTGA
upper sequence: Vv08s0007g09000.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G33340.1 (Glycine max), 3'ss of exon 3
gtaagttgttatttctttatgatggtaatataatagagggatcattgtgcttgaagtttcatatatgagcatccttgtcagataaacttcagcaatgatctggttctcattttgacctactaggagaagaaaaccaaaatttaaaaatgttg--ttattggatttaatcaagagtctcacattttcactttgattttccagGAATGGTAGCAGCCCTGACCAATGAGAGTGCTACCAGCAAATCTGTATACTTTGCACATTGTACATCAGAGATGATCTTCATTACTCATTTGTTGGCTGA
||| || ||||| || | | | | || | | || | | | ||| | || | | | || || || |||| || | ||| | || ||| || ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||| || ||||||||||
---------------------------------------------------------------aatgctaattcttgtt-------ctcttccttttgtttagtattactagtggcaaa-tgggaaagtttgactgtgacaataggaacctgccttgtttcattt--ccacagCTTACACTTATTTTCTTATTATTGTCAGGAATGGTAGCAGCCCTTACCAATGAGAGTGCTACCAGCAAATCTGTATACTTTGCACACTGCACATCAGAGA----------------------------
upper sequence: Vv08s0007g09000.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA03G28970.1 (Glycine max), 3'ss of exon 2
gtaagttgttatttctttatgatggtaatataatagagggatcattgtgcttgaagtttcatatatgagcatccttgtcagataaacttcagcaatgatctggttctcattttgacctactaggagaagaaaaccaaaatttaaaaatgttgttattggatt-taatcaagagtctcacattttcactttgat-tttccagGAATGGTAGCAGCCCTGACCAATGAGAGTGCTACCAGCAAATCTGTATACTTTGCACATTGTACATCAGAGATGATCTTCATTACTCATTTGTTGGCTGA
| | | | | | | || |||| | | || | | | | | | | || || || |||| | | | |||||| ||| || || ||||||||||||| ||||| ||||||||||||||||| ||||||||||| ||||||||||| || || || || ||||| || || |||||||||||||||||
-------------------------------------------------------------------------------------------------gtttaacatac-ctctaattt--tatgagaggcattcccatgtcttacact-tgatttctgatttacaatctataaatcctgtttttcattttaatgttgtcagGAATGGTAGCTGCCCTTACCAATGAGAGTGCTACAAGCAAATCTGTGTACTTTGCACACTGCACGTCGGAAATGATATTTATCACTCATTTGTTGGCTGA
upper sequence: Vv08s0007g09000.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA19G31730.1 (Glycine max), 3'ss of exon 2
gtaagttgttatttctttatgatggtaatataatagagggatcattgtgcttgaagtttcatatatgagcatccttgtcagataaacttcagcaatgatctggttctcattttgacctactaggagaagaaaaccaaaatttaaaaatgttgttattggatttaatcaagagtctcacattttcactttgat-tttccagGAATGGTAGCAGCCCTGACCAATGAGAGTGCTACCAGCAAATCTGTATACTTTGCACATTGTACATCAGAGATGATCTTCATTACTCATTTGTTGGCTGA
| || || | | | ||||| ||| | | || | | | || | ||| | |||| | | | |||||| ||| || | ||||||||||||||||||| || ||||||||||| || |||||||| || ||||||||||| || || || || ||||| || || ||||| |||||||||||
----------------------------------------------------------------------------------------------aagaaaggggttcaacatacctctacttttagaggcattcccatgtcttg---ctttctgatt---tataatatataaatcctgtttttcattttaatgctgtcagGAATGGTAGCAGCCCTTACAAATGAGAGTGCCACAAGCAAATCCGTGTACTTTGCACACTGCACGTCGGAAATGATATTTATCACTCACTTGTTGGCTGA
upper sequence: Vv08s0007g09000.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT2G41540.2 (Arabidopsis thaliana), 3'ss of exon 3
gtaagttgttatttctttatgatggtaatataatagagggatcattgtgcttgaagtttcatatatgagcatccttgtcagataaacttcagcaatgatctggttctcattttgacctactaggagaagaaaaccaaaatttaaaaatgttgttattggatttaatcaagagtctcacattttcactttgattttccagGAATGGTAGCAGCCCTGACCAATGAGAGTGCTACCAGCAAATCTGTATACTTTGCACATTGTACATCAGAGATGATCTTCATTACTCATTTGTTGGCTGA
| | | || | ||| | | | || | || |||| ||| ||| | | || | | || | |||| |||||||| || || || || ||||| ||||| ||||| || || || ||||| ||||||||||| |||||||| || || |||||||| | || ||
---------------------------------------------------------------------------------------------------------------gtaagtttctgtatgtagaca--cggatttgagtgata--attatcaagttt--tcacactttgatccttcttgttgtg----ttcagGTATGGTAGCGGCGCTCACTAACGAGAGCGCTACAAGCAAGTCGGTGTATTTTGCTCATTGTACATCTGAGATGATATTTATAACTCATTTACTAGCAGAMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|349821528|gb|FQ408087.1|FQ408087EST: CACTCATGAAGTTATGGGTGGCTTAAAGAATGTGTATGCCATTGGAGCCG GAATGGTAGCAGCCCTGACCAATGAGAGTGCTACCAGCAAATCTGTATACT
genomic: CACTCATGAAGTTATGGGTGGCTTAAAGAATGTGTATGCCATTGGAGCCGgtaagttgtt ... gattttccagGAATGGTAGCAGCCCTGACCAATGAGAGTGCTACCAGCAAATCTGTATACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatgttgttattggatttaatcaagagtctcacattttcactttgattttccagGAATGGTAGCAGCCCTGACCAATGAGAGTGCTACCAGCAAATCTGTATACTTTGCACATTGTACATCAGAGATGATCTTCATTACTCATTTGTTGGCTGA
ttttcc CT-rich tract
ttattggatttaat TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttgttatttctttatgatggtaatataatagagggatcattgtgcttgaagtttcatatatgagcatccttgtcagataaacttcagcaatgatctggttctcattttgacctactaggagaagaaaaccaaaatttaaaaatgttgttattggatttaatcaagagtctcacattttcactttgattttccagGAATGGTAGCAGCCCTGACCAATGAGAGTGCTACCAGCAAATCTGTATACTTTGCACATTGTACATCAGAGATGATCTTCATTACTCATTTGTTGGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG